48 Open source projects that are alternatives of or similar to FunFolDesData

Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm

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Preforms De novo protein design using machine learning and PyRosetta to generate a novel protein structure

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An all-atom protein structure dataset for machine learning.

Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.

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Fitness landscape exploration sandbox for biological sequence design.

Cancer-dedicated gene set interpretation

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Implementation of trRosetta and trDesign for Pytorch, made into a convenient package, for protein structure prediction and design

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An ultra-high-performance protein-protein docking for heterogeneous supercomputers

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The specification of the MMTF format for biological structures

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A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design

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De novo protein structure prediction using iteratively predicted structural constraints

Deep learning framework for data mining protein-protein interactions using CNN

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

A curated list of awesome computational cryo-EM methods.

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)

Modeling molecular ensembles with scalable data structures and parallel computing

View proteins and trajectories in the terminal

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A dependency-free cross-platform swiss army knife for PDB files.

MOLeculAR structure annoTator

Inference of couplings in proteins and RNAs from sequence variation

Paratope Prediction using Deep Learning

Recurrent Geometric Network in Pytorch

An open-source platform for developing protein models beyond AlphaFold.

Official git repository for Biopython (originally converted from CVS)

🧬 An R package for visualizing molecular data in 3D

A denoising diffusion probabilistic model (DDPM) tailored for conditional generation of protein distograms

Template with code & dataset for the "Structural basis for solubility in protein expression systems" challenge at the Copenhagen Bioinformatics Hackathon 2021.

PDB parser in Haskell

Implementation of Geometric Vector Perceptron, a simple circuit for 3d rotation equivariance for learning over large biomolecules, in Pytorch. Idea proposed and accepted at ICLR 2021

Fully convolutional neural networks for protein residue-residue contact prediction

3D hotspot mutation proximity analysis tool

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Text recognition (optical character recognition) with deep learning methods.

RosettaDesign using PyRosetta

Structural Bioinformatics Training Workshop & Hackathon 2018